CG13096

UniProt ID: H0RNN8
Organism: Drosophila melanogaster
Review Status: DRAFT
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Gene Description

CG13096 encodes a 681-residue protein with a long disordered, lysine-rich N-terminal region (about residues 1-248), a central divergent ribosomal-protein-L1-like (uL1-like) alpha/beta domain, and an extremely acidic disordered C-terminal tail. It is not a ribosomal protein: the fly cytoplasmic uL1 proteins are RpL10Aa/RpL10Ab and the mitochondrial uL1m is mRpL1 (CG7494). By sequence similarity and most orthology resources it belongs to the eukaryotic lineage of nucleolar L1-domain ribosome-biogenesis factors that includes human RSL1D1 and yeast Utp30 and Cic1, although PANTHER separates it into a family of its own. Unpublished thesis work reports that the protein (there named Centagon 3) is nuclear and nucleolar in ovarian germ and follicle cells, binds RNA in vitro without clear sequence specificity, and is needed for normal germline development, but none of this has appeared in the peer-reviewed literature. Its molecular activity, RNA targets and role in ribosome biogenesis remain unestablished.

Core Functions

Putative nucleolar RNA-binding protein of the divergent eukaryotic ribosomal-L1-domain (RSL1D1/Utp30/Cic1-like) lineage, presumably acting in ribosome biogenesis. The RNA-binding activity and nucleolar location are reported only in unpublished thesis work, and the family placement is contested (PANTHER puts CG13096 in a separate family). No specific step in ribosome assembly or rRNA processing has been shown.

Molecular Function:
RNA binding
Cellular Locations:
Supporting Evidence:
  • file:DROME/CG13096/CG13096-deep-research-falcon.md
    Subsequent in-vitro binding assays showed that Centagon 3 bound both satellite-III RNA and a tubulin transcript.
  • file:DROME/CG13096/CG13096-deep-research-falcon.md
    Its GFP signal overlapped the nucleolar marker Modulo
  • file:DROME/CG13096/CG13096-bioinformatics/RESULTS.md
    all place CG13096 with the RSL1D1/UTP30/CIC1 lineage of nucleolar ribosomal-L1-domain proteins, with human RSL1D1 and worm F53F4.11 as the closest metazoan relatives.

References

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Suggested Questions for Experts

Q: Is CG13096 the Drosophila counterpart of human RSL1D1 (as OrthoFinder, OrthoInspector, PhylomeDB, SonicParanoid, eggNOG KOG1685 and OrthoDB suggest), or does PANTHER's separation of it into PTHR48162, with Candida NRI1 and Dictyostelium DDB_G0279335, reflect a real lineage-specific split? A PAINT node for the RSL1D1/Utp30/Cic1 lineage would decide whether any IBA transfer to CG13096 is appropriate.

Q: Will the Centagon thesis data (nucleolar GFP knock-in, RNA binding, germline RNAi phenotypes) be published so that FlyBase can replace the current ND annotations on Q9VLK2 with experimental ones?

Suggested Experiments

Experiment: Check whether CG13096 co-sediments with pre-40S or pre-60S particles, and map pre-rRNA processing intermediates (northern blot or pulse-chase) after CG13096 RNAi in S2 cells, with an RNAi-resistant rescue construct to rule out off-target effects.

Type: Sucrose gradient fractionation and pre-rRNA processing analysis

Experiment: Identify the RNAs bound by endogenous CG13096 in vivo with CLIP/eCLIP from a tagged knock-in line, to test whether it contacts specific rRNA sites as the uL1 fold does in the ribosome.

Type: CLIP-seq

Deep Research

Falcon

(CG13096-deep-research-falcon.md)

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πŸ“š Additional Documentation

Notes

(CG13096-notes.md)

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Bioinformatics Results

(RESULTS.md)

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